******************************************************************************** MEME - Motif discovery tool ******************************************************************************** MEME version 4.3.0 (Release date: Sat Sep 26 01:51:56 PDT 2009) For further information on how to interpret these results or to get a copy of the MEME software please access http://meme.nbcr.net. This file may be used as input to the MAST algorithm for searching sequence databases for matches to groups of motifs. MAST is available for interactive use and downloading at http://meme.nbcr.net. ******************************************************************************** ******************************************************************************** REFERENCE ******************************************************************************** If you use this program in your research, please cite: Timothy L. Bailey and Charles Elkan, "Fitting a mixture model by expectation maximization to discover motifs in biopolymers", Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, pp. 28-36, AAAI Press, Menlo Park, California, 1994. ******************************************************************************** ******************************************************************************** TRAINING SET ******************************************************************************** DATAFILE= temp.fasta ALPHABET= ACDEFGHIKLMNPQRSTVWY Sequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ GUAD_BACSU 1.0000 156 TADA_AQUAE 1.0000 151 Y246_BUCAP 1.0000 151 RIBD_BACSU 1.0000 361 Y1285_RICCN 1.0000 153 ******************************************************************************** ******************************************************************************** COMMAND LINE SUMMARY ******************************************************************************** This information can also be useful in the event you wish to report a problem with the MEME software. command: meme temp.fasta -mod zoops -nmotifs 3 -prior dirichlet -nostatus -protein -text model: mod= zoops nmotifs= 3 evt= inf object function= E-value of product of p-values width: minw= 8 maxw= 50 minic= 0.00 width: wg= 11 ws= 1 endgaps= yes nsites: minsites= 2 maxsites= 5 wnsites= 0.8 theta: prob= 1 spmap= pam spfuzz= 120 global: substring= yes branching= no wbranch= no em: prior= dirichlet b= 0.01 maxiter= 50 distance= 1e-05 data: n= 972 N= 5 sample: seed= 0 seqfrac= 1 Letter frequencies in dataset: A 0.100 C 0.024 D 0.038 E 0.080 F 0.040 G 0.062 H 0.028 I 0.082 K 0.080 L 0.079 M 0.025 N 0.046 P 0.037 Q 0.026 R 0.043 S 0.052 T 0.049 V 0.065 W 0.007 Y 0.036 Background letter frequencies (from dataset with add-one prior applied): A 0.099 C 0.024 D 0.038 E 0.080 F 0.040 G 0.061 H 0.028 I 0.082 K 0.080 L 0.079 M 0.025 N 0.046 P 0.037 Q 0.026 R 0.043 S 0.052 T 0.049 V 0.065 W 0.008 Y 0.036 ******************************************************************************** ******************************************************************************** MOTIF 1 width = 50 sites = 4 llr = 448 E-value = 7.6e-032 ******************************************************************************** -------------------------------------------------------------------------------- Motif 1 Description -------------------------------------------------------------------------------- Simplified A :::::::::3:8:a:::a:::a:::::3:::::::::::::::3::33a: pos.-specific C ::::::::::::::::::::::8::::::::::5:::::3::a::a3::: probability D ::::::::8::::::::::::::::::::::35:3::::::::::::::: matrix E ::::55::::::::a:::::8::::::::::3::3:::::8::::::::: F :::::::::::::::::::::::::::::::::::::::::::::::::: G ::::::::::::::::::::::3:::3:::::3::::::::::::::5:: H 5:::::::::::a::::::::::::::::::::::::::::::::::::: I ::::3::::::::::55:8::::::5::::::::33:::::::3:::::8 K ::::::33:::::::::::33::3::3:5::::::::::::::::::::: L ::::::3:::3:::::3:3:::::35::::a::::8:::8::::::3::3 M :::::::::::::::3:::::::::::::::::::::::::::3a::::: N :a5::::83::::::::::3:::33:33:3:33::::::::::::::::: P :::::::::5:::::::::::::::::::::::::::::::a:3:::::: Q 3:::::3::::::::::::::::::::::3::::::::::3::::::::: R :::::::::::::::::::5:::53::::3:::::::::::::::::::: S ::5::33::3::::::::::::::::33::::::::::3:::::::3::: T :::333::::8:::::3::::::::::3:::::33::38::::::::::: V :::8:::::::::::3::::::::3::::::3:::::8:::::::::::: W 3::::::::::::::::::::::::::::::::::::::::::::::::: Y :::::::::::3::::::::::::::::53:::3::a::::::::::3:: bits 7.0 6.3 5.6 * ** 4.9 * * ** ** Relative 4.2 ** * * * * ** ** Entropy 3.5 **** ** * *** * ** * * * ******* ** * (161.7 bits) 2.8 **** * ********* ******* * *** ** ******** ** *** 2.1 ************************************************** 1.4 ************************************************** 0.7 ************************************************** 0.0 -------------------------------------------------- Multilevel HNNVEEKNDPTAHAEIIAIREACRLIGAKNLDDCDLYVTLEPCAMCAGAI consensus Q STISLKNALY ML LKK GKNLKNYQ EGTEI TSCQ I CA L sequence W TTQ S VT N NR NS R NNYI M LY S V ST Y V T P S -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- -------------------------------------------------- Y246_BUCAP 43 7.55e-52 VFQEKIIGTG WNSVISQNDSTAHAEIIALREAGRNIKNYRLVNTTLYVTLQPCMMCCGAI INSRIKRLVF GUAD_BACSU 41 7.02e-51 VKDGAIIAEG QNNVTTSNDPTAHAEVTAIRKACKVLGAYQLDDCILYTSCEPCPMCLGAI YWARPKAVFY TADA_AQUAE 40 1.41e-50 VKEGEIISKA HNSVEELKDPTAHAEMLAIKEACRRLNTKYLEGCELYVTLEPCIMCSYAL VLSRIEKVIF Y1285_RICCN 36 1.62e-48 RLHQKIIAST HNNTEEKNNALYHAEIIAINEACNLISSKNLNDYDIYVTLEPCAMCAAAI AHSRLKRLFY -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- Y246_BUCAP 7.6e-52 42_[1]_59 GUAD_BACSU 7e-51 40_[1]_66 TADA_AQUAE 1.4e-50 39_[1]_62 Y1285_RICCN 1.6e-48 35_[1]_68 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 1 width=50 seqs=4 Y246_BUCAP ( 43) WNSVISQNDSTAHAEIIALREAGRNIKNYRLVNTTLYVTLQPCMMCCGAI 1 GUAD_BACSU ( 41) QNNVTTSNDPTAHAEVTAIRKACKVLGAYQLDDCILYTSCEPCPMCLGAI 1 TADA_AQUAE ( 40) HNSVEELKDPTAHAEMLAIKEACRRLNTKYLEGCELYVTLEPCIMCSYAL 1 Y1285_RICCN ( 36) HNNTEEKNNALYHAEIIAINEACNLISSKNLNDYDIYVTLEPCAMCAAAI 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 50 n= 727 bayes= 7.49785 E= 7.6e-032 -865 -865 -865 -865 -865 -865 414 -865 -865 -865 -865 -865 -865 325 -865 -865 -865 -865 495 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 443 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 343 -865 -865 -865 325 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 234 354 -865 -865 -865 -865 -865 265 -865 -865 -865 161 -865 -865 -865 -865 -865 -865 -865 -865 234 -865 -865 -865 -865 -865 -865 265 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 225 234 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 165 167 -865 -865 -865 325 -865 225 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 165 -865 -865 401 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 429 -865 -865 -865 -865 -865 -865 -865 -865 243 -865 -865 -865 -865 -865 -865 -865 -865 134 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 374 -865 -865 225 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 167 -865 -865 -865 -865 -865 -865 392 -865 -865 -865 292 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 278 -865 -865 -865 -865 -865 -865 514 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 334 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 365 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 261 -865 -865 331 -865 -865 -865 -865 -865 -865 195 -865 -865 -865 -865 -865 -865 -865 -865 -865 261 -865 167 -865 -865 -865 -865 -865 -865 234 -865 -865 -865 334 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 320 -865 167 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 165 -865 -865 243 -865 -865 352 -865 -865 -865 -865 -865 -865 -865 -865 323 -865 -865 -865 -865 165 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 334 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 495 -865 -865 -865 202 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 165 -865 -865 243 -865 -865 352 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 167 -865 243 -865 -865 252 -865 -865 195 -865 -865 -865 -865 -865 -865 -865 -865 -865 261 -865 267 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 202 -865 -865 165 -865 -865 243 -865 -865 -865 225 -865 -865 -865 -865 134 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 243 -865 -865 -865 225 234 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 265 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 378 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 243 -865 325 252 -865 -865 -865 -865 278 -865 -865 -865 -865 -865 -865 -865 -865 -865 367 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 270 165 -865 -865 -865 -865 -865 -865 -865 243 -865 -865 -865 -865 -865 195 -865 -865 -865 -865 370 -865 -865 202 -865 -865 -865 -865 -865 243 -865 -865 -865 -865 -865 -865 -865 -865 -865 437 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 234 -865 -865 278 -865 -865 270 165 -865 -865 -865 161 -865 -865 -865 -865 -865 -865 -865 -865 234 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 161 -865 325 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 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-865 -865 -865 -865 167 -865 -865 -865 -865 -865 225 -865 -865 -865 -865 134 -865 -865 -865 -865 302 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 278 334 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 320 -865 167 -865 -865 -865 -865 -865 -865 -865 -865 -865 -865 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 50 nsites= 4 E= 7.6e-032 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 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0.000000 0.250000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.500000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.750000 0.000000 0.250000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 1 regular expression -------------------------------------------------------------------------------- [HQW]N[NS][VT][EIT][EST][KLQS][NK][DN][PAS][TL][AY]HAE[IMV][ILT]A[IL][RKN][EK]A[CG][RKN][LNRV][IL][GKNS][ANST][KY][NQRY]L[DENV][DGN][CTY][DEIT][LI]Y[VT][TS][LC][EQ]PC[AIMP]MC[ACLS][GAY]A[IL] -------------------------------------------------------------------------------- Time 0.40 secs. ******************************************************************************** ******************************************************************************** MOTIF 2 width = 11 sites = 5 llr = 116 E-value = 7.6e-002 ******************************************************************************** -------------------------------------------------------------------------------- Motif 2 Description -------------------------------------------------------------------------------- Simplified A :::::a::::: pos.-specific C ::::::::::: probability D :::::::::24 matrix E 6:::::::::2 F :::2:::::2: G 22::a:::::: H ::::::::::: I :::2::44::: K :::::::::6: L ::2::::2::: M ::::::::::: N 2:::::::::: P :28:::::::: Q ::::::::::2 R ::::::::::2 S ::::::::::: T ::::::::::: V :6:6::64a:: W ::::::::::: Y ::::::::::: bits 7.0 6.3 5.6 4.9 Relative 4.2 * * Entropy 3.5 * ** * (33.5 bits) 2.8 ******* *** 2.1 *********** 1.4 *********** 0.7 *********** 0.0 ----------- Multilevel EVPVGAVIVKD consensus GGLF IV DE sequence NP I L FQ R -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ----------- Y1285_RICCN 16 2.13e-12 KQAKIAFDKN EVPVGAVVVDR LHQKIIASTH TADA_AQUAE 22 1.45e-11 REAKRAFEKG EVPVGAIIVKE GEIISKAHNS GUAD_BACSU 23 2.52e-11 LACEGVNAGI GGPFGAVIVKD GAIIAEGQNN RIBD_BACSU 23 3.94e-11 AKQGEGQTES NPLVGAVVVKD GQIVGMGAHL Y246_BUCAP 25 5.46e-11 KYAYYAEENG EVPIGAILVFQ EKIIGTGWNS -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- Y1285_RICCN 2.1e-12 15_[2]_127 TADA_AQUAE 1.4e-11 21_[2]_119 GUAD_BACSU 2.5e-11 22_[2]_123 RIBD_BACSU 3.9e-11 22_[2]_328 Y246_BUCAP 5.5e-11 24_[2]_116 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 2 width=11 seqs=5 Y1285_RICCN ( 16) EVPVGAVVVDR 1 TADA_AQUAE ( 22) EVPVGAIIVKE 1 GUAD_BACSU ( 23) GGPFGAVIVKD 1 RIBD_BACSU ( 23) NPLVGAVVVKD 1 Y246_BUCAP ( 25) EVPIGAILVFQ 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 11 n= 922 bayes= 7.51885 E= 7.6e-002 -897 -897 -897 291 -897 170 -897 -897 -897 -897 -897 211 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 170 -897 -897 -897 -897 -897 -897 242 -897 -897 -897 -897 321 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 135 -897 -897 442 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 231 -897 -897 129 -897 -897 -897 -897 -897 -897 -897 -897 -897 321 -897 -897 -897 -897 -897 -897 -897 402 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 334 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 229 -897 -897 -897 -897 -897 -897 -897 -897 -897 321 -897 -897 -897 -897 -897 -897 -897 -897 -897 229 -897 135 -897 -897 -897 -897 -897 -897 -897 263 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 395 -897 -897 -897 -897 238 -897 231 -897 -897 -897 291 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 338 133 -897 -897 -897 -897 -897 -897 -897 -897 -897 293 220 -897 -897 -897 -897 -897 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 11 nsites= 5 E= 7.6e-002 0.000000 0.000000 0.000000 0.600000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.600000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.800000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.600000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.600000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.200000 0.000000 0.000000 0.000000 0.600000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.400000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 2 regular expression -------------------------------------------------------------------------------- [EGN][VGP][PL][VFI]GA[VI][IVL]V[KDF][DEQR] -------------------------------------------------------------------------------- Time 0.65 secs. ******************************************************************************** ******************************************************************************** MOTIF 3 width = 13 sites = 5 llr = 132 E-value = 2.3e-001 ******************************************************************************** -------------------------------------------------------------------------------- Motif 3 Description -------------------------------------------------------------------------------- Simplified A :2:::2:::46:: pos.-specific C ::::::::::::: probability D ::::::::::::4 matrix E ::::::2::::42 F :::::::62:::: G ::2::::::4::: H 22::::::::::2 I :::4::::::::: K ::::a:::::::: L :::2::4:::2:: M ::::::::::2:: N 6:::::::::::: P :::2:::::2::: Q ::::::::::::: R ::8::6:::::2: S :6:::::::::4: T ::::::::::::: V :::2::422:::: W 2::::2::::::: Y :::::::26:::2 bits 7.0 6.3 5.6 4.9 Relative 4.2 Entropy 3.5 * * ** ** (38.0 bits) 2.8 *** ** ** ** 2.1 ************* 1.4 ************* 0.7 ************* 0.0 ------------- Multilevel NSRIKRLFYAAED consensus HAGL AVVFGLSE sequence WH P WEYVPMRH V Y -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 sites sorted by position p-value -------------------------------------------------------------------------------- Sequence name Start P-value Site ------------- ----- --------- ------------- Y1285_RICCN 87 2.35e-14 PCAMCAAAIA HSRLKRLFYGASD SKHGVVESNL Y246_BUCAP 94 6.34e-13 PCMMCCGAII NSRIKRLVFGASY KDLKKNPFLK RIBD_BACSU 89 1.15e-12 KTPPCAELII NSGIKRVFVAMRD PNPLVAGRGI GUAD_BACSU 92 1.26e-12 PCPMCLGAIY WARPKAVFYAAEH TDAAEAGFDD TADA_AQUAE 122 2.67e-12 VFNILDEPTL NHRVKWEYYPLEE ASELLSEFFK -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 block diagrams -------------------------------------------------------------------------------- SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- Y1285_RICCN 2.4e-14 86_[3]_54 Y246_BUCAP 6.3e-13 93_[3]_45 RIBD_BACSU 1.1e-12 88_[3]_260 GUAD_BACSU 1.3e-12 91_[3]_52 TADA_AQUAE 2.7e-12 121_[3]_17 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 in BLOCKS format -------------------------------------------------------------------------------- BL MOTIF 3 width=13 seqs=5 Y1285_RICCN ( 87) HSRLKRLFYGASD 1 Y246_BUCAP ( 94) NSRIKRLVFGASY 1 RIBD_BACSU ( 89) NSGIKRVFVAMRD 1 GUAD_BACSU ( 92) WARPKAVFYAAEH 1 TADA_AQUAE ( 122) NHRVKWEYYPLEE 1 // -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific scoring matrix -------------------------------------------------------------------------------- log-odds matrix: alength= 20 w= 13 n= 912 bayes= 8.45026 E= 2.3e-001 -897 -897 -897 -897 -897 -897 282 -897 -897 -897 -897 369 -897 -897 -897 -897 -897 -897 463 -897 102 -897 -897 -897 -897 -897 282 -897 -897 -897 -897 -897 -897 -897 -897 351 -897 -897 -897 -897 -897 -897 -897 -897 -897 170 -897 -897 -897 -897 -897 -897 -897 -897 420 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 229 -897 135 -897 -897 242 -897 -897 -897 -897 163 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 365 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 102 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 379 -897 -897 -897 463 -897 -897 -897 -897 133 -897 -897 -897 -897 -897 234 -897 -897 -897 -897 -897 -897 -897 263 -897 -897 -897 -897 -897 -897 389 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 163 -897 246 -897 -897 -897 -897 231 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 163 -897 404 202 -897 -897 -897 -897 270 -897 -897 -897 -897 -897 -897 242 -897 -897 -897 -897 -897 -897 -897 260 -897 -897 -897 -897 -897 -897 -897 -897 135 299 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 233 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 220 293 -897 -897 -897 -897 -897 -897 338 133 -897 -897 282 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 -897 246 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 position-specific probability matrix -------------------------------------------------------------------------------- letter-probability matrix: alength= 20 w= 13 nsites= 5 E= 2.3e-001 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.600000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.600000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.800000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.200000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.600000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.600000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.600000 0.400000 0.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.600000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.400000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.400000 0.200000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- Motif 3 regular expression -------------------------------------------------------------------------------- [NHW][SAH][RG][ILPV]K[RAW][LVE][FVY][YFV][AGP][ALM][ESR][DEHY] -------------------------------------------------------------------------------- Time 0.86 secs. ******************************************************************************** ******************************************************************************** SUMMARY OF MOTIFS ******************************************************************************** -------------------------------------------------------------------------------- Combined block diagrams: non-overlapping sites with p-value < 0.0001 -------------------------------------------------------------------------------- SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM ------------- ---------------- ------------- GUAD_BACSU 5.92e-63 22_[2(2.52e-11)]_7_[1(7.02e-51)]_1_[3(1.26e-12)]_52 TADA_AQUAE 1.27e-62 21_[2(1.45e-11)]_7_[1(1.41e-50)]_32_[3(2.67e-12)]_17 Y246_BUCAP 6.35e-64 24_[2(5.46e-11)]_7_[1(7.55e-52)]_1_[3(6.34e-13)]_45 RIBD_BACSU 4.01e-16 22_[2(3.94e-11)]_55_[3(1.15e-12)]_260 Y1285_RICCN 2.03e-63 15_[2(2.13e-12)]_9_[1(1.62e-48)]_1_[3(2.35e-14)]_54 -------------------------------------------------------------------------------- ******************************************************************************** ******************************************************************************** Stopped because nmotifs = 3 reached. ******************************************************************************** CPU: kodomo.fbb.msu.ru ********************************************************************************